Biodiversity Literature Repository

Submit to community
Liberated Data
Published November 21, 2025 | Version v1
Journal article Open

A long-term ecological research dataset from the marine genetic monitoring programme ARMS-MBON 2020-2021

Authors/Creators

  • 1. Gothenburg Global Biodiversity Centre, Gothenburg, Sweden|University of Gothenburg, SciLifeLab, Gothenburg, Sweden
  • 2. University of Galway, Galway, Ireland
  • 3. University of the Basque Country (UPV/EHU), Leioa, Spain|Plentzia Marine Station (PiE-UPV/EHU), Plentzia, Spain
  • 4. Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece
  • 5. Royal Botanic Garden Edinburgh, Edinburgh, United Kingdom
  • 6. Department of Biological, Geological and Environmental Science, University of Bologna, Ravenna, Italy
  • 7. Flanders Marine Institute (VLIZ), Oostende, Belgium
  • 8. Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece|Department of Environment, Faculty of Environment, Ionian University, Zakynthos, Greece
  • 9. Department of Environment, Faculty of Environment, Ionian University, Zakynthos, Greece|Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece
  • 10. Centro de Investigación Mariña, Universidade de Vigo, Vigo, Spain
  • 11. Tvärminne Zoological Station, University of Helsinki, Hanko, Finland
  • 12. National Institute of Biology, Marine Biology Station Piran, Piran, Slovenia
  • 13. European Marine Biological Resource Centre (EMBRC), Paris, France
  • 14. European Marine Biological Resource Centre (EMBRC), Paris, France|Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece
  • 15. Department of Ecoscience, Marine Diversity and Experimental Ecology, Aarhus university, Aarhus, Denmark
  • 16. Plentzia Marine Station (PiE-UPV/EHU), Plentzia, Spain|University of the Basque Country (UPV/EHU), Leioa, Spain
  • 17. University of Gothenburg, Gothenburg, Sweden|Gothenburg Global Biodiversity Centre, Gothenburg, Sweden

Description

Continuing the international efforts of the ARMS Marine Biodiversity Observation Network (ARMS-MBON), we present data from the second sampling campaign, coming from 56 Autonomous Reef Monitoring Structures (ARMS) deployed in 2020 and 2021 along European coasts under the European Marine Omics Biodiversity Observation Network (EMO BON). The dataset includes information on sampling locations and conditions, sample archiving and quality reports of collected samples. Data and metadata are openly accessible and can be downloaded from the associated GitHub repository. Sequence data can be accessed via the European Nucleotide Archive (ENA) through the corresponding accession numbers. Images of ARMS plates are stored on PlutoF and can be downloaded through links provided in this paper. Sequence data were processed and explored with the PEMA pipeline, resulting in 17,194, 7,235 and 5,261 unique ASVs/OTUs for COI, 18S and ITS, respectively. In this dataset, ARMS revealed the presence of over 61 eukaryotic phyla, aligning with our previous sampling campaign. Amongst these phyla, 35 had sequences identified to the species level. With this dataset and its associated paper, we provide a standardised resource for marine biodiversity monitoring and scientific analyses of benthic biodiversity. The presented data product supports future studies on the status and changes in species composition, distribution and genetic diversity.

Files

BDJ_article_148981.pdf

Files (821.4 kB)

Name Size Download all
md5:d179e9109a8e139ce7074e60cef24655
821.4 kB Preview Download

System files (325.5 kB)

Name Size Download all
md5:29426a9cec64238e83924040116ad640
325.5 kB Download

Linked records

Additional details

Cites
Publication: 10.1038/s41564-022-01145-5 (DOI)
Publication: 10.3897/rio.10.e119943 (DOI)
Publication: 10.1016/j.cosust.2022.101152 (DOI)
Publication: 10.1016/j.knosys.2021.107489 (DOI)
Publication: 10.1101/2024.09.02.610558 (DOI)
Publication: 10.1175/BAMS-D-13-00047.1 (DOI)
Publication: 10.3389/fmars.2023.929989 (DOI)
Publication: 10.1007/s00338-022-02302-2 (DOI)
Publication: 10.1016/S0167-7799(97)01027-5 (DOI)
Publication: 10.1111/1755-0998.14073 (DOI)
Publication: 10.1016/j.marpolbul.2019.02.066 (DOI)
Publication: 10.1186/s40168-018-0605-2 (DOI)
Publication: 10.1111/1365-2664.12417 (DOI)
Publication: 10.1111/1755-0998.12138 (DOI)
Publication: 10.3389/fmars.2021.730063 (DOI)
Publication: 10.7717/peerj.14071 (DOI)
Publication: 10.1016/j.ocecoaman.2022.106436 (DOI)
Publication: 10.56093/ijans.v92i5.113397 (DOI)
Publication: 10.1093/nar/gks1160 (DOI)
Publication: 10.1038/s41598-018-32917-x (DOI)
Publication: 10.1111/j.1365-294X.2009.04411.x (DOI)
Publication: 10.2989/1814232X.2022.2104373 (DOI)
Publication: 10.1016/S0140-6736(14)60409-8 (DOI)
Publication: 10.1038/s41559-018-0667-3 (DOI)
Publication: 10.1111/brv.12359 (DOI)
Publication: 10.1371/journal.pone.0049334 (DOI)
Publication: 10.1186/1742-9994-10-34 (DOI)
Publication: 10.1073/pnas.1424997112 (DOI)
Publication: 10.1007/978-3-030-20389-4_4 (DOI)
Publication: 10.1038/sdata.2017.27 (DOI)
Publication: 10.1016/j.scitotenv.2019.04.333 (DOI)
Publication: 10.1093/gigascience/giad068 (DOI)
Publication: 10.1111/gcb.14108 (DOI)
Publication: 10.1371/journal.pbio.1001127 (DOI)
Publication: 10.3389/fmars.2018.00211 (DOI)
Publication: 10.1093/nar/gky1022 (DOI)
Publication: 10.3389/fmars.2020.572680 (DOI)
Publication: 10.1126/science.abe6731 (DOI)
Publication: 10.1007/s10530-024-03503-2 (DOI)
Publication: 10.3389/fmars.2022.971939 (DOI)
Publication: 10.1016/j.biocon.2016.07.014 (DOI)
Publication: 10.1016/j.gecco.2019.e00547 (DOI)
Publication: 10.3389/fmars.2023.1118120 (DOI)
Publication: 10.1038/nrg3642 (DOI)
Publication: 10.1371/journal.pone.0090234 (DOI)
Publication: 10.3233/DS-210053 (DOI)
Publication: 10.1038/s41598-018-30157-7 (DOI)
Publication: 10.1111/j.1365-294X.2012.05470.x (DOI)
Publication: 10.3389/fmars.2019.00440 (DOI)
Publication: 10.1111/mec.15592 (DOI)
Publication: 10.1128/AEM.00062-07 (DOI)
Publication: 10.1093/gigascience/giaa022 (DOI)
Publication: 10.3390/rs11101186 (DOI)
Has part
Figure: 10.3897/BDJ.13.e148981.figure1 (DOI)
Figure: 10.3897/BDJ.13.e148981.figure2 (DOI)
Figure: 10.3897/BDJ.13.e148981.figure3 (DOI)
Figure: 10.3897/BDJ.13.e148981.figure4 (DOI)
Figure: 10.3897/BDJ.13.e148981.figure5 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl4 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl5 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl6 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl7 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl8 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl9 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl10 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl11 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl1 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl2 (DOI)
Other: 10.3897/BDJ.13.e148981.suppl3 (DOI)

References

  • Abreu A, Bourgois E, Gristwood A, Troublé R, Acinas S, Bork P, Boss E, Bowler C, Budinich M, Chaffron S, de Vargas C, Delmont T, Eveillard D, Guidi L, Iudicone D, Kandels S, Morlon H, Lombard F, Pepperkok R, Karlusich JJP, Piganeau G, Régimbeau A, Sommeria-Klein G, Stemmann L, Sullivan M, Sunagawa S, Wincker P, Zablocki O, Arendt D, Bilic J, Finn R, Heard E, Rouse B, Vamathevan J, Casotti R, Cancio I, Cunliffe M, Kervella AE, Kooistra WCF, Obst M, Pade N, Power D, Santi I, Tsagaraki TM, Vanaverbeke J, Foundation TO, Oceans T, Laboratory (EMBL) EMB, Consortium (EMBRC-ERIC) EMBRC-ERI (2022) Priorities for ocean microbiome research. Nature Microbiology 7 (7): 937‑947. https://doi.org/10.1038/s41564-022-01145-5
  • Ahyong S, Boyko CB, Bernot J, Brandão SN, Daly M, De Grave S, de Voogd NJ, Gofas S, Hernandez F, Hughes L, Neubauer TA, Paulay G, van der Meij S, Boydens B, Decock W, Dekeyzer S, Goharimanesh M, Vandepitte L, Vanhoorne B, Adlard R, Agatha S, Ahn KJ, Alonso MV, Alvarez B, Alves K, Amler MR, Amorim V, Anderberg A, Andrés-Sánchez S, Ang Y, Antić D, Antonietto LS, Arango C, Ariño AH, Artois T, Atkinson S, Auffenberg K, Bailly N, Baldwin BG, Bank R, Baquero E, Barber A, Barrett RL, Bartsch I, Bellan-Santini D, Bergh N, Bernard C, Berrios Ortega FJ, Berta A, Bezerra TN, Bhandari P, Bieler R, Blanco S, Blasco-Costa I, Blazewicz M, Bledzki LA, Bock P, Bonifacino M, Böttger-Schnack R, Bouchet P, Boury-Esnault N, Bouzan R, Boxshall G, Bradshaw C, Bray R, Brito Seixas AL, Browning J, Bruhl JJ, Bruneau A, Budaeva N, Bueno-Villegas J, Calvo Casas J, Campos-Filho IS, Cárdenas P, Carstens E, Carvalho AB, Cavalcante Bellini B, Cedhagen T, Chan BK, Chan TY, Cheng HJ, Chernyshev A, Choong H, Christenhusz M, Churchill M, Cole E, Collins AG, Collins GE, Collins K, Consorti L, Copilaș-Ciocianu D, Corbari L, Cordeiro R, Costa SM, Costa VM, Costa Corgosinho PH, Coste M, Cramphorn B, Crandall KA, Cremonte F, Cribb T, Cutmore S, Dahdouh-Guebas F, Daneliya M, Dauvin JC, Davie P, De Broyer C, de Lima Ferreira P, de Mazancourt V, de Moura Oliveira L, Decker P, Defaye D, Dekker H, DeSalle R, Di Capua I, Dippenaar S, Dohrmann M, Dolan J, Domning D, D'Onofrio R, Downey R, Dreyer N, Duke NC, Eisendle U, Eitel M, Eleaume M, Elliott T, Enghoff H, Epler J, Esquete Garrote P, Evenhuis NL, Ewers-Saucedo C, Faber M, Figueroa D, Filser J, Fišer C, Ford BA, Ford KA, Fordyce E, Foster W, Fransen C, Freire S, Fujimoto S, Furuya H, Galbany-Casals M, Gale A, Galea H, Gao T, García-Moro P, Garic R, Garnett S, Gaviria-Melo S, Gebauer S, Gerken S, Gibson D, Gibson R, Gil A, Gil J, Gittenberger A, Glasby C, Glenner H, Glover A, Goetghebeur P, Gómez-Noguera SE, Gonçalves GO, Gondim AI, Gonzalez BC, González-Elizondo Md, González-Gallego L, González-Solís D, Goodwin C, Gostel M, Grabowski M, Grossi M, Guerra-García JM, Guerrero JM, Guidetti R, Guiry MD, Gutierrez D, Hadfield KA, Hajdu E, Halanych K, Hallermann J, Hayward BW, Hegna TA, Heiden G, Hendrycks E, Hennen D, Herbert D, Herrera Bachiller A, Hipp AL, Hodda M, Høeg J, Hoeksema B, Holovachov O, Hooge MD, Hooper JN, Horton T, Houart R, Hroudová Z, Hughes T, Huys R, Hyžný M, Iniesta LF, Iseto T, Iwataki M, Janssen R, Jaume D, Jazdzewski K, Jersabek CD, Jiménez-Mejías P, Jin XF, Jóźwiak P, Jung M, Kabat A, Kajihara H, Kakui K, Kantor Y, Karanovic I, Karapunar B, Karthick B, Kasai H, Kathirithamby J, Katinas L, Katz A, Kilian N, Kim S, Kim YH, King R, Kirk PM, Klautau M, Kociolek JP, Köhler F, Konowalik K, Kotov A, Kovac L, Kovács Z, Kremenetskaia A, Kristensen RM, Kroh A, Kulikovskiy M, Kullander S, Kupriyanova E, Lacroix-Carignan É, Lamaro A, Lambert G, Larridon I, Lazarus D, Le Coze F, Le Roux M, LeCroy S, Leduc D, Lefkowitz EJ, Lemaitre R, Léveillé-Bourret É, Licher M, Lichter-Marck IH, Lim SC, Lindsay D, Liu Y, Loeuille B, Lois R, Lörz AN, Lu YF, Luceño Garcés M, Ludwig m, Lundholm N, Maciel Silva J, Macpherson E, Mah C, Mamos T, Manconi R, Mańko M, Mapstone G, Marco Rosado N, Marek PE, Marhold K, Markello K, Márquez-Corro JI, Marshall B, Marshall DJ, Martin P, Martín-Bravo S, Martinez Arbizu P, Maslakova S, Mateos E, McFadden C, McInnes SJ, McKenzie R, Means J, Mees J, Mejía-Madrid HH, Meland K, Merrin KL, Mesterházy A, Míguez M, Miller J, Mills C, Moestrup Ø, Mokievsky V, Molodtsova T, Mooi R, Morales-Alonso A, Morandini AC, Moreira da Rocha R, Morel J, Moreyra C. LD, Moritz L, Morrow C, Mortelmans J, Muasya MA, Müller A, Muñoz Gallego AR, Muñoz Schüler P, Musco L, Naczi RF, Nascimento JB, Nesom G, Neto Silva Md, Neubert E, Neuhaus B, Ng P, Nguyen AD, Nielsen S, Nishikawa T, Norenburg J, Nunes C, Nunes Godeiro N, O'Hara T, Opresko D, Osawa M, Osigus HJ, Ota Y, Páll-Gergely B, Panero JL, Parra-Gómez A, Patterson D, Pedram M, Pelser P, Peña Santiago R, Perbiche-Neves G, Pereira Jd, Pereira PH, Pereira SG, Pereira-Silva L, Perez-Losada M, Petrescu I, Pfingstl T, Piasecki W, Pica D, Picton B, Pignatti J, Pilger JF, Pinheiro U, Pisera AB, Poatskievick Pierezan B, Polhemus D, Poore GC, Potapov A, Potapova M, Praxedes RA, Půža V, Rasaminirina F, Read G, Reich M, Reimer JD, Reip H, Resende Bueno V, Reuscher M, Reynolds JW, Reznicek AA, Richling I, Rimet F, Rink G, Ríos P, Rius M, Rodríguez E, Rogers DC, Rosenberg G, Ross GM, Rützler K, Sá HA, Saavedra M, Sabater LM, Sabbe K, Sabroux R, Saiz-Salinas J, Sala S, Samimi-Namin K, Sánchez Santos N, Sánchez-Villegas R, Santagata S, Santos S, Santos SG, Santos Filho MA, Sanz Arnal M, Sar E, Saucède T, Schärer L, Schierwater B, Schilling E, Schmidt-Lebuhn A, Schneider C, Schneider L, Schneider S, Schönberg C, Schrével J, Schuchert P, Schweitzer C, Segers H, Semple JC, Senna AR, Sennikov A, Serejo C, Shaik S, Shamsi S, Sharma J, Shear WA, Shenkar N, Short M, Sicinski J, Sierwald P, Silva ML, Silva da Silva Filho PJ, Simmons E, Simpson DA, Sinniger F, Sinou C, Sivell D, Smit H, Smit N, Smol N, Sørensen MV, Souza-Filho JF, Spalink D, Spelda J, Starr JR, Sterrer W, Steyn HM, Stoev P, Stöhr S, Suárez-Morales E, Susanna A, Suttle C, Swalla BJ, Tanaka M, Tandberg AH, Tang D, Tasker M, Taylor J, Taylor J, Taylor K, Tchesunov A, Temereva E, ten Hove H, ter Poorten JJ, Thirouin K, Thomas JD, Thomas WW, Thuesen EV, Thurston M, Thuy B, Timi JT, Todaro A, Todd J, Tucker GC, Turon X, Tyler S, Uetz P, Urbatsch L, Uribe-Palomino J, Urtubey E, Utevsky S, Uy M, Vacelet J, Vader W, Väinölä R, Valdés-Florido A, Valls Domedel G, Van de Vijver B, van Haaren T, van Soest RW, Vanreusel A, Vázquez-García B, Venekey V, Verhoeff T, Verloove F, Villaverde T, Vinarski M, Vonk R, Vos C, Vouilloud AA, Walker-Smith G, Walter TC, Watling L, Wayland M, Wesener T, Wetzel CE, Whipps C, White K, Wieneke U, Williams DM, Williams G, Williams N, Wilson KL, Wilson R, Witkowski J, Xanthos M, Xavier J, Xu K, Yano O, Yu D, Zanol J, Zeidler W, Zhang S, Zhao Z, Zullini A (2024) World register of marine species (WoRMS). WoRMS Editorial Board. Accessed: 2025-06-06. URL: https://www.marinespecies.org
  • Arvanitidis C, Basset A, Tienderen P, Huertas Olivares CI, Di Muri C, de Moncuit L, Los W (2024) LifeWatch ERIC Strategic Working Plan Outcomes. Research Ideas and Outcomes 10: 119943. https://doi.org/10.3897/rio.10.e119943
  • Balvanera P, Brauman KA, Cord AF, Drakou EG, Geijzendorffer IR, Karp DS, Martín-López B, Mwampamba TH, Schröter M (2022) Essential ecosystem service variables for monitoring progress towards sustainability. Current Opinion in Environmental Sustainability 54 https://doi.org/10.1016/j.cosust.2022.101152
  • Benítez-Hidalgo A, Barba-González C, García-Nieto J, Gutiérrez-Moncayo P, Paneque M, Nebro A, Roldán-García MdM, Aldana-Montes J, Navas-Delgado I (2021) TITAN: A knowledge-based platform for Big Data workflow management. Knowledge-Based Systems 232 https://doi.org/10.1016/j.knosys.2021.107489
  • Blair J, Weiser M, Siler C, Kaspari M, Smith S, McLaughlin JF, Marshall K (2024) A hybrid approach to invertebrate biomonitoring using computer vision and DNA metabarcoding. bioRxiv. https://doi.org/10.1101/2024.09.02.610558
  • Bojinski S, Verstraete M, Peterson T, Richter C, Simmons A, Zemp M (2014) The concept of essential climate variables in support of climate research, applications, and policy. Bulletin of the American Meteorological Society https://doi.org/10.1175/BAMS-D-13-00047.1
  • Bouchet P, Decock W, Lonneville B, Vanhoorne B, Vandepitte L (2023) Marine biodiversity discovery: the metrics of new species descriptions. Frontiers in Marine Science 10 https://doi.org/10.3389/fmars.2023.929989
  • Burkett V, Fernandez L, Nicholls RJ, Woodroffe CD (2009) Climate change impacts on coastal biodiversity. Climate Change and Biodiversity in the Americas..
  • Coker D, DiBattista J, Stat M, Arrigoni R, Reimer J, Terraneo T, Villalobos R, Nowicki J, Bunce M, Berumen M (2023) DNA metabarcoding confirms primary targets and breadth of diet for coral reef butterflyfishes. Coral Reefs 42 (1): 1‑15. https://doi.org/10.1007/s00338-022-02302-2
  • Cowan D (1997) The marine biosphere: a global resource for biotechnology. Trends in Biotechnology 15 (4): 129‑131. https://doi.org/10.1016/S0167-7799(97)01027-5
  • Daraghmeh N, Exter K, Pagnier J, Balazy P, Cancio I, Chatzigeorgiou G, Chatzinikolaou E, Chelchowski M, Chrismas NAM, Comtet T, Dailianis T, Deneudt K, Diaz De Cerio O, Digenis M, Gerovasileiou V, Gonzalez J, Kauppi L, Kristoffersen JB, Kuklinski P, Lasota R, Levy L, Malachowicz M, Mavric B, Mortelmans J, Paredes E, Pocwierz-Kotus A, Reiss H, Santi I, Sarafidou G, Skouradakis G, Solbakken J, Staehr PU, Tajadura J, Thyrring J, Troncoso J, Vernadou E, Viard F, Zafeiropoulos H, Zbawicka M, Pavloudi C, Obst M (2025) A long-term ecological research data set from the marine genetic monitoring programme ARMS-MBON 2018-2020. https://doi.org/10.1111/1755-0998.14073
  • David R, Uyarra M, Carvalho S, Anlauf H, Borja A, Cahill A, Carugati L, Danovaro R, De Jode A, Feral J, Guillemain D, Martire ML, D'Avray LTDV, Pearman J, Chenuil A (2019) Lessons from photo analyses of Autonomous Reef Monitoring Structures as tools to detect (bio-)geographical, spatial, and environmental effects. Marine Pollution Bulletin 141: 420‑429. https://doi.org/10.1016/j.marpolbul.2019.02.066
  • Davis N, Proctor D, Holmes S, Relman DA, Callahan B (2018) Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data. Microbiome 6 https://doi.org/10.1186/s40168-018-0605-2
  • Geijzendorffer I, Regan E, Pereira H, Brotons L, Brummitt N, Gavish Y, Haase P, Martin C, Mihoub J, Secades C, Schmeller D, Stoll S, Wetzel F, Walters M (2016) Bridging the gap between biodiversity data and policy reporting needs: An Essential Biodiversity Variables perspective. Journal of Applied Ecology 53 (5): 1341‑1350. https://doi.org/10.1111/1365-2664.12417
  • Geller J, Meyer C, Parker M, Hawk H (2013) Redesign of PCR primers for mitochondrial cytochrome c oxidase subunit I for marine invertebrates and application in all‐taxa biotic surveys - Geller - 2013 - Molecular Ecology Resources - Wiley Online Library. Molecular Ecology Resources 13: 851‑861. https://doi.org/10.1111/1755-0998.12138
  • Gielings R, Fais M, Fontaneto D, Creer S, Costa FO, Renema W, Macher J (2021) DNA metabarcoding methods for the study of marine benthic meiofauna: A review. Frontiers in Marine Science 8 https://doi.org/10.3389/fmars.2021.730063
  • Gold Z, Wall AR, Schweizer TM, Pentcheff ND, Curd EE, Barber PH, Meyer RS, Wayne R, Stolzenbach K, Prickett K, Luedy J, Wetzer R (2022) A manager's guide to using eDNA metabarcoding in marine ecosystems. PeerJ 10: 14071. https://doi.org/10.7717/peerj.14071
  • González Hernández M, León C, García C, Lam-González Y (2023) Assessing the climate-related risk of marine biodiversity degradation for coastal and marine tourism. Ocean & Coastal Management 232 https://doi.org/10.1016/j.ocecoaman.2022.106436
  • Green S, Rajakumar M, Umamaheswari T, Sujath Kumar NV, Jawahar P, Keer NR, Yadav R, Yadav AK (2022) Evaluating and ranking the Vulnerability of the marine ecosystem to multiple threats. The Indian Journal of Animal Sciences 92 (5): 654‑658. https://doi.org/10.56093/ijans.v92i5.113397
  • Guidi L, Guerra AF, Canchaya C, Curry E, Foglini F, Irisson JO, Malde K, Marshall CT, Obst M, Ribeiro R, Tjiputra J, Heymans SJ, Alexander B, Piniella ÁM, Kellett P, Coopman J (2020) Big data in marine science. European Marine Board [ISBN 978-94-92043-93-1]
  • Guillou L, Bachar D, Audic S, Bass D, Berney C, Bittner L, Boutte C, Burgaud G, Vargas C, Decelle J, Campo J, Dolan J, Dunthorn M, Edvardsen B, Holzmann M, Kooistra WC, Lara E, Le Bescot V, Logares R, Mahé F, Massana R, Montresor M, Morard R, Not F, Pawlowski J, Probert I, Sauvadet A, Siano R, Stoeck T, Vaulot D, Zimmermann P, Christen R (2013) The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy. Nucleic Acids Research 41 (ue D1). https://doi.org/10.1093/nar/gks1160
  • Günther B, Knebelsberger T, Neumann H, Laakmann S, Martínez Arbizu P (2018) Metabarcoding of marine environmental DNA based on mitochondrial and nuclear genes. Scientific Reports 8 (1). https://doi.org/10.1038/s41598-018-32917-x
  • Hardy C, Krull E, Hartley D, Oliver R (2010) Carbon source accounting for fish using combined DNA and stable isotope analyses in a regulated lowland river weir pool. Molecular Ecology 19 (1): 197‑212. https://doi.org/10.1111/j.1365-294X.2009.04411.x
  • Harris L, Skowno A, Sink K, Van Niekerk L, Holness S, Monyeki M, Majiedt P (2022) An indicator-based approach for cross-realm coastal biodiversity assessments. African Journal of Marine Science 44 (3): 239‑253. https://doi.org/10.2989/1814232X.2022.2104373
  • Horton R, Beaglehole R, Bonita R, Raeburn J, McKee M, Wall S (2014) From public to planetary health: a manifesto. The Lancet 383 (9920). https://doi.org/10.1016/S0140-6736(14)60409-8
  • Kissling WD, Walls R, Bowser A, Jones M, Kattge J, Agosti D, Amengual J, Basset A, van Bodegom P, Cornelissen JC, Denny E, Deudero S, Egloff W, Elmendorf S, Alonso García E, Jones K, Jones O, Lavorel S, Lear D, Navarro L, Pawar S, Pirzl R, Rüger N, Sal S, Salguero-Gómez R, Schigel D, Schulz K, Skidmore A, Guralnick R (2018a) Towards global data products of essential biodiversity variables on species traits. Nature Ecology & Evolution 2 (10): 1531‑1540. https://doi.org/10.1038/s41559-018-0667-3
  • Kissling WD, Ahumada J, Bowser A, Fernandez M, Fernández N, García EA, Guralnick R, Isaac NB, Kelling S, Los W, McRae L, Mihoub J, Obst M, Santamaria M, Skidmore A, Williams K, Agosti D, Amariles D, Arvanitidis C, Bastin L, De Leo F, Egloff W, Elith J, Hobern D, Martin D, Pereira H, Pesole G, Peterseil J, Saarenmaa H, Schigel D, Schmeller D, Segata N, Turak E, Uhlir P, Wee B, Hardisty A (2018b) Building Essential Biodiversity Variables (EBVs) of species distribution and abundance at a global scale. Biological Reviews 93 (1): 600‑625. https://doi.org/10.1111/brv.12359
  • Lanzén A, Jorgensen S, Huson D, Gorfer M, Grindhaug S, Jonassen I, Ovreås L, Urich T (2012) CREST - Classification Resources for Environmental Sequence Tags. PLOS ONE 7 (11): 49334. https://doi.org/10.1371/journal.pone.0049334
  • Leray M, Yang J, Meyer C, Mills S, Agudelo N, Ranwez V, Boehm J, Machida R (2013) A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents. Frontiers in Zoology 10 (1). https://doi.org/10.1186/1742-9994-10-34
  • Leray M, Knowlton N (2015) DNA barcoding and metabarcoding of standardized samples reveal patterns of marine benthic diversity. Proceedings of the National Academy of Sciences 112 (7): 2076‑2081. https://doi.org/10.1073/pnas.1424997112
  • Luypaert T, Hagan J, McCarthy M, Poti M (2020) Status of marine biodiversity in the Anthropocene. In: Jungblut S, Liebich V, Bode-Dalby M (Eds) YOUMARES 9 - The oceans: Our research, our future. Springer International Publishing, Cham, 25 pp. [ISBN 978-3-030-20388-7 978-3-030-20389-4]. https://doi.org/10.1007/978-3-030-20389-4_4
  • Machida R, Leray M, Ho SL, Knowlton N (2017) Metazoan mitochondrial gene sequence reference datasets for taxonomic assignment of environmental samples. Sci Data 4: 170027. https://doi.org/10.1038/sdata.2017.27
  • Mazaris A, Kallimanis A, Gissi E, Pipitone C, Danovaro R, Claudet J, Rilov G, Badalamenti F, Stelzenmüller V, Thiault L, Benedetti-Cecchi L, Goriup P, Katsanevakis S, Fraschetti S (2019) Threats to marine biodiversity in European protected areas. Science of The Total Environment 677: 418‑426. https://doi.org/10.1016/j.scitotenv.2019.04.333
  • Meyer R, Davies N, Pitz KJ, Meyer C, Samuel R, Anderson J, Appeltans W, Barker K, Chavez FP, Duffy JE, Goodwin KD, Hudson M, Hunter ME, Karstensen J, Laney CM, Leinen M, Mabee P, Macklin JA, Muller-Karger F, Pade N, Pearlman J, Phillips L, Provoost P, Santi I, Schigel D, Schriml LM, Soccodato A, Suominen S, Thibault KM, Ung V, van de Kamp J, Wallis E, Walls R, Buttigieg PL (2023) The founding charter of the Omic Biodiversity Observation Network (Omic BON). GigaScience 12 https://doi.org/10.1093/gigascience/giad068
  • Miloslavich P, Bax N, Simmons S, Klein E, Appeltans W, Aburto-Oropeza O, Andersen Garcia M, Batten S, Benedetti-Cecchi L, David M. C,, Chiba S, Duffy JE, Dunn D, Fischer A, Gunn J, Kudela R, Marsac F, Muller-Karger F, Obura D, Shin Y (2018) Essential ocean variables for global sustained observations of biodiversity and ecosystem changes. Global Change Biology 24 (6): 2416‑2433. https://doi.org/10.1111/gcb.14108
  • Mora C, Tittensor DP, Adl S, Simpson AB, Worm B (2011) How many species are there on earth and in the ocean? PLOS Biology 9 (8). https://doi.org/10.1371/journal.pbio.1001127
  • Muller-Karger F, Miloslavich P, Bax N, Simmons S, Costello M, Sousa Pinto I, Canonico G, Turner W, Gill M, Montes E, Best B, Pearlman J, Halpin P, Dunn D, Benson A, Martin C, Weatherdon L, Appeltans W, Provoost P, Klein E, Kelble C, Miller R, Chavez F, Iken K, Chiba S, Obura D, Navarro L, Pereira H, Allain V, Batten S, Benedetti-Checchi L, Duffy JE, Kudela R, Rebelo L, Shin Y, Geller G (2018) Advancing marine biological observations and data requirements of the complementary Essential Ocean Variables (EOVs) and Essential Biodiversity Variables (EBVs) frameworks. Frontiers in Marine Science 5 https://doi.org/10.3389/fmars.2018.00211
  • Nilsson RH, Larsson K, Taylor AS, Bengtsson-Palme J, Jeppesen T, Schigel D, Kennedy P, Picard K, Glöckner FO, Tedersoo L, Saar I, Koljalg U, Abarenkov K (2019) The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications. Nucleic Acids Research 47 (ue D1). https://doi.org/10.1093/nar/gky1022
  • Obst M, Exter K, Allcock AL, Arvanitidis C, Axberg A, Bustamante M, Cancio I, Carreira-Flores D, Chatzinikolaou E, Chatzigeorgiou G, Chrismas N, Clark M, Comtet T, Dailianis T, Davies N, Deneudt K, de Cerio OD, Fortič A, Gerovasileiou V, Hablützel P, Keklikoglou K, Kotoulas G, Lasota R, Leite B, Loisel S, Lévêque L, Levy L, Malachowicz M, Mavrič B, Meyer C, Mortelmans J, Norkko J, Pade N, Power AM, Ramšak A, Reiss H, Solbakken J, Staehr P, Sundberg P, Thyrring J, Troncoso J, Viard F, Wenne R, Yperifanou EI, Zbawicka M, Pavloudi C (2020) A Marine Biodiversity Observation Network for genetic monitoring of hard-bottom communities (ARMS-MBON). Frontiers in Marine Science 7 https://doi.org/10.3389/fmars.2020.572680
  • O'Hara C, Frazier M, Halpern B (2021) At-risk marine biodiversity faces extensive, expanding, and intensifying human impacts. Science 372 (6537): 84‑87. https://doi.org/10.1126/science.abe6731
  • Pagnier J, Daraghmeh N, Obst M (2025) Assessing the effectiveness of genetic observatory networks in detecting and monitoring marine non-indigenous species. Biological Invasions. Springer https://doi.org/10.1007/s10530-024-03503-2
  • Portas A, Quillien N, Culioli G, Briand J (2022) Eukaryotic diversity of marine biofouling from coastal to offshore areas. Frontiers in Marine Science 9 https://doi.org/10.3389/fmars.2022.971939
  • Proença V, Martin LJ, Pereira HM, Fernandez M, McRae L, Belnap J, Böhm M, Brummitt N, García-Moreno J, Gregory R, Honrado JP, Jürgens N, Opige M, Schmeller D, Tiago P, van Swaay CM (2017) Global biodiversity monitoring: From data sources to Essential Biodiversity Variables. Biological Conservation 213: 256‑263. https://doi.org/10.1016/j.biocon.2016.07.014
  • Ruppert K, Kline R, Rahman MS (2019) Past, present, and future perspectives of environmental DNA (eDNA) metabarcoding: A systematic review in methods, monitoring, and applications of global eDNA. Global Ecology and Conservation 17 https://doi.org/10.1016/j.gecco.2019.e00547
  • Santi I, Beluche O, Beraud M, Buttigieg PL, Casotti R, Cox C, Cunliffe M, Davies N, De Cerio OD, Exter K, Kervella AE, Kotoulas G, Lagaisse R, Laroquette A, Louro B, Not F, Obst M, Pavloudi C, Poulain J, Præbel K, Vanaverbeke J, Pade N (2023) European marine omics biodiversity observation network: a strategic outline for the implementation of omics approaches in ocean observation. Frontiers in Marine Science 10 https://doi.org/10.3389/fmars.2023.1118120
  • Sims D, Sudbery I, Ilott N, Heger A, Ponting C (2014) Sequencing depth and coverage: key considerations in genomic analyses. Nature Reviews Genetics 15 (2): 121‑132. https://doi.org/10.1038/nrg3642
  • Smith D, Peay K (2014) Sequence Depth, Not PCR Replication, Improves Ecological Inference from Next Generation DNA Sequencing. PLOS ONE 9 (2). https://doi.org/10.1371/journal.pone.0090234
  • Soiland-Reyes S, Sefton P, Crosas M, Castro LJ, Coppens F, Fernández J, Garijo D, Grüning B, La Rosa M, Leo S, Ó Carragáin E, Portier M, Trisovic A, Community R, Groth P, Goble C (2022) Packaging research artefacts with RO-Crate. Data Science 5 (2): 97‑138. https://doi.org/10.3233/DS-210053
  • Stefanni S, Stanković D, Borme D, De Olazabal A, Juretić T, Pallavicini A, Tirelli V (2018) Multi-marker metabarcoding approach to study mesozooplankton at basin scale. Scientific Reports 8 (1). https://doi.org/10.1038/s41598-018-30157-7
  • Taberlet P, Coissac E, Pompanon F, Brochmann C, Willerslev E (2012) Towards next-generation biodiversity assessment using DNA metabarcoding. Molecular Ecology 21 (8): 2045‑2050. https://doi.org/10.1111/j.1365-294X.2012.05470.x
  • Tanhua T, Pouliquen S, Hausman J, O'Brien K, Bricher P, De Bruin T, Buck JH, Burger E, Carval T, Casey K, Diggs S, Giorgetti A, Glaves H, Harscoat V, Kinkade D, Muelbert J, Novellino A, Pfeil B, Pulsifer P, Van De Putte A, Robinson E, Schaap D, Smirnov A, Smith N, Snowden D, Spears T, Stall S, Tacoma M, Thijsse P, Tronstad S, Vandenberghe T, Wengren M, Wyborn L, Zhao Z (2019) Ocean FAIR Data Services. Frontiers in Marine Science 6 https://doi.org/10.3389/fmars.2019.00440
  • van der Loos LM, Nijland R (2021) Biases in bulk: DNA metabarcoding of marine communities and the methodology involved. Molecular ecology 30 (13): 3270‑3288. https://doi.org/10.1111/mec.15592
  • Wang Q, Garrity GM, Tiedje JM, Cole JC (2007) Naïve Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy. Appl Environ Microbiol 73 https://doi.org/10.1128/AEM.00062-07
  • Zafeiropoulos H, Viet HQ, Vasileiadou K, Potirakis A, Arvanitidis C, Topalis P, Pavloudi C, Pafilis E (2020) PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes. GigaScience 9 (3). https://doi.org/10.1093/gigascience/giaa022
  • Zeng Y, Su Z, Barmpadimos I, Perrels A, Poli P, Boersma KF, Frey A, Ma X, de Bruin K, Goosen H, John V, Roebeling R, Schulz J, Timmermans W (2019) Towards a traceable climate service: Assessment of quality and usability of essential climate variables. Remote Sensing 11 (10). https://doi.org/10.3390/rs11101186